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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattctcagtgttcacggctgctgcttcctgtgactggttcatgagccacactgtctaatcacctcgttgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTCGGGTCAAAACCGAGCCCCGCGCGGCCGCAGTCGTCCTCGAGGAAGGTGG

Basic information

species Zea mays
transcript GRMZM2G112337_T04
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G112337_T04 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g40840.1 (Oryza sativa), 3'ss of exon 9
---gtattctcagtgttcacggctgctgcttcctgtgactggttcatgagccacact---gtctaatcacctcgttg-------cctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTCGGGTCAAAACCGAGCCCCGCGCGGCCGCAGTCGTCCTCGAGGAAGGTGG---
      ||||      || |   |  |  |||   || |||| ||   | ||| |      || | |  | |  ||        | |||||||||||||| ||||| ||||| |||||||| || || ||||||||||| ||||| || ||||||||||| || ||||| || ||   ||| ||||||| |    
gtacccttctgtccaatccccattaatctttcgcatgtctggctctaaaaccatatctcattccatttgctttcttccaaaactcatttcagGACCAGAAGAAGATAAACGACCAGCTAGCTGCAGAGCAGGAGAAGCTCTTCGGCTCGAAACCGAGCCCAGCCCGGCCCCAATC---CTCAAGGAAGGCGCCTG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|87157169|gb|DY401958.1|DY401958
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|88756750|gb|DY540891.1|DY540891
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|148995697|gb|EE034920.2|EE034920
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|71771989|gb|DR969926.1|DR969926
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|67021761|gb|CO450510.1|CO450510
EST:     AATACAAAATCCTGAGGCANGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCANNNAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|71773221|gb|DR971130.1|DR971130
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|148928684|gb|EC873287.2|EC873287
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|89249959|gb|DY621745.1|DY621745
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|211026266|gb|FL455139.1|FL455139
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCSACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|71306089|gb|DR789194.1|DR789194
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|15426945|gb|BI542767.1|BI542767
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCCCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|71435944|gb|DR816994.1|DR816994
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|149098529|gb|EE184515.2|EE184515
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|22820000|gb|BU500090.1|BU500090
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|60351440|gb|DN218413.1|DN218413
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|149078381|gb|EE167156.2|EE167156
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|89763677|gb|DY690772.1|DY690772
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|67020793|gb|CO449542.1|CO449542
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|211163232|gb|FL071797.1|FL071797
EST:     GGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: GGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|149088740|gb|EE177864.2|EE177864
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|15352994|gb|BI502605.1|BI502605
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
EST: gi|211373071|gb|FL457566.1|FL457566
EST:     AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGG                         GACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC
genomic: AATACAAAATCCTGAGGCAGGAGAAGGAAGACGAGAAGCGACGAATGAGGgtattctcag ... tgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttcctgtgactggttcatgagccacactgtctaatcacctcgttgcctttcagGACCAGAAAAAGATGAACGAACAGCTAGCCGCCGAACAGGAGAAGCTGTTCGGGTCAAAACCGAGCCCCGCGCGGCCGCAGTCGTCCTCGAGGAAGGTGG
                              gtctaat  putative branch site (score: 3)
                                       cctcgttgcctttc  putative PPT